Zinc in PDB 8zdc: Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3

All present enzymatic activity of Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3:
2.7.11.1; 4.2.99.18;

The binding sites of Zinc atom in the Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 (pdb code 8zdc). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3, PDB code: 8zdc:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 within 5.0Å range: probe atom residue distance (Å) B Occ y:Zn500 b:137.0 occ:1.00 SG y:CYS288 2.3 69.8 1.0 SG y:CYS270 2.3 78.7 1.0 SG y:CYS273 2.3 80.1 1.0 SG y:CYS285 2.3 69.6 1.0 CB y:CYS270 3.1 78.7 1.0 CB y:CYS273 3.4 80.1 1.0 CB y:CYS288 3.6 69.8 1.0 N y:CYS288 3.7 69.8 1.0 CB y:CYS285 3.8 69.6 1.0 N y:CYS273 4.0 80.1 1.0 CA y:CYS288 4.1 69.8 1.0 CA y:CYS273 4.3 80.1 1.0 N y:GLY289 4.4 63.6 1.0 CB y:HIS287 4.6 70.5 1.0 C y:CYS288 4.6 69.8 1.0 CA y:CYS270 4.6 78.7 1.0 C y:HIS287 4.8 70.5 1.0 CG2 y:THR292 5.0 62.8 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 within 5.0Å range: probe atom residue distance (Å) B Occ d:Zn201 b:149.5 occ:1.00 CD2 d:LEU36 2.6 44.7 1.0 CG d:MET38 2.6 41.4 1.0 CB d:MET38 2.6 41.4 1.0 SD d:MET38 2.6 41.4 1.0 CG d:LEU36 3.2 44.7 1.0 CD1 d:PHE43 3.3 26.5 1.0 CB d:LEU36 3.3 44.7 1.0 CE1 d:PHE43 3.8 26.5 1.0 CA d:MET38 3.9 41.4 1.0 CG d:PHE43 4.1 26.5 1.0 N d:MET38 4.2 41.4 1.0 CE d:MET38 4.3 41.4 1.0 CA d:LEU36 4.4 44.7 1.0 CB d:PHE43 4.4 26.5 1.0 C d:LEU36 4.6 44.7 1.0 CD1 d:LEU36 4.7 44.7 1.0 C d:MET38 4.7 41.4 1.0 CA d:PHE43 4.7 26.5 1.0 O d:LEU36 4.7 44.7 1.0 CZ d:PHE43 4.9 26.5 1.0 O d:MET38 5.0 41.4 1.0

J.Cheng, Z.Huang, M.Wang, Y.Li, R.Beckmann, J.Cheng. N/A N/A.
ISSN: ISSN 1097-2765
DOI: 10.1016/J.MOLCEL.2025.01.013